If you're asking how something other than the sqlite database Chrome profile data is stored in would prevent the intended behavior of deleting corrupted files silently, obviously the two issues are orthogonal. But a file-based system would mean a corrupted file (the others untouched) rather than a corrupted database (everything is gone). I'm horrified at the idea of replacing my resilient, inherently modular set of files with a brittle monolithic database.
At the end of the day, you'll be chasing pointers inside that SQLite database, where you store tables, indexes and such. Interestingly, this is how a filesystem works. Tables, indexes, redirections and fields. Very much like a database. EXT4 is a table of redirections, nothing fancy [0].
[0]: https://blogs.oracle.com/linux/understanding-ext4-disk-layou...